Job ID = 14160549 SRX = SRX8582559 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:07:30 29615542 reads; of these: 29615542 (100.00%) were unpaired; of these: 510245 (1.72%) aligned 0 times 24140488 (81.51%) aligned exactly 1 time 4964809 (16.76%) aligned >1 times 98.28% overall alignment rate Time searching: 00:07:30 Overall time: 00:07:30 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 6091788 / 29105297 = 0.2093 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 03:24:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8582559/SRX8582559.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8582559/SRX8582559.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8582559/SRX8582559.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8582559/SRX8582559.bam'] # control file = None # effective genome size = 9.00e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Thu, 09 Dec 2021 03:24:24: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:24:24: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:24:33: 1000000 INFO @ Thu, 09 Dec 2021 03:24:41: 2000000 INFO @ Thu, 09 Dec 2021 03:24:48: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 03:24:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8582559/SRX8582559.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8582559/SRX8582559.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8582559/SRX8582559.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8582559/SRX8582559.bam'] # control file = None # effective genome size = 9.00e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Thu, 09 Dec 2021 03:24:54: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:24:54: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:24:56: 4000000 INFO @ Thu, 09 Dec 2021 03:25:04: 1000000 INFO @ Thu, 09 Dec 2021 03:25:05: 5000000 INFO @ Thu, 09 Dec 2021 03:25:13: 2000000 INFO @ Thu, 09 Dec 2021 03:25:14: 6000000 INFO @ Thu, 09 Dec 2021 03:25:21: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 03:25:23: 7000000 INFO @ Thu, 09 Dec 2021 03:25:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8582559/SRX8582559.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8582559/SRX8582559.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8582559/SRX8582559.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8582559/SRX8582559.bam'] # control file = None # effective genome size = 9.00e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Thu, 09 Dec 2021 03:25:24: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:25:24: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:25:30: 4000000 INFO @ Thu, 09 Dec 2021 03:25:32: 8000000 INFO @ Thu, 09 Dec 2021 03:25:34: 1000000 INFO @ Thu, 09 Dec 2021 03:25:39: 5000000 INFO @ Thu, 09 Dec 2021 03:25:41: 9000000 INFO @ Thu, 09 Dec 2021 03:25:44: 2000000 INFO @ Thu, 09 Dec 2021 03:25:48: 6000000 INFO @ Thu, 09 Dec 2021 03:25:50: 10000000 INFO @ Thu, 09 Dec 2021 03:25:53: 3000000 INFO @ Thu, 09 Dec 2021 03:25:57: 7000000 INFO @ Thu, 09 Dec 2021 03:25:59: 11000000 INFO @ Thu, 09 Dec 2021 03:26:03: 4000000 INFO @ Thu, 09 Dec 2021 03:26:06: 8000000 INFO @ Thu, 09 Dec 2021 03:26:07: 12000000 INFO @ Thu, 09 Dec 2021 03:26:12: 5000000 INFO @ Thu, 09 Dec 2021 03:26:14: 9000000 INFO @ Thu, 09 Dec 2021 03:26:16: 13000000 INFO @ Thu, 09 Dec 2021 03:26:22: 6000000 INFO @ Thu, 09 Dec 2021 03:26:23: 10000000 INFO @ Thu, 09 Dec 2021 03:26:24: 14000000 INFO @ Thu, 09 Dec 2021 03:26:31: 7000000 INFO @ Thu, 09 Dec 2021 03:26:31: 11000000 INFO @ Thu, 09 Dec 2021 03:26:33: 15000000 INFO @ Thu, 09 Dec 2021 03:26:40: 8000000 INFO @ Thu, 09 Dec 2021 03:26:41: 12000000 INFO @ Thu, 09 Dec 2021 03:26:42: 16000000 INFO @ Thu, 09 Dec 2021 03:26:50: 13000000 INFO @ Thu, 09 Dec 2021 03:26:50: 9000000 INFO @ Thu, 09 Dec 2021 03:26:51: 17000000 INFO @ Thu, 09 Dec 2021 03:26:58: 14000000 INFO @ Thu, 09 Dec 2021 03:26:59: 10000000 INFO @ Thu, 09 Dec 2021 03:27:00: 18000000 INFO @ Thu, 09 Dec 2021 03:27:06: 15000000 INFO @ Thu, 09 Dec 2021 03:27:08: 19000000 INFO @ Thu, 09 Dec 2021 03:27:09: 11000000 INFO @ Thu, 09 Dec 2021 03:27:15: 16000000 INFO @ Thu, 09 Dec 2021 03:27:17: 20000000 INFO @ Thu, 09 Dec 2021 03:27:19: 12000000 INFO @ Thu, 09 Dec 2021 03:27:23: 17000000 INFO @ Thu, 09 Dec 2021 03:27:25: 21000000 INFO @ Thu, 09 Dec 2021 03:27:28: 13000000 INFO @ Thu, 09 Dec 2021 03:27:32: 18000000 INFO @ Thu, 09 Dec 2021 03:27:34: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 03:27:38: 14000000 INFO @ Thu, 09 Dec 2021 03:27:40: 19000000 INFO @ Thu, 09 Dec 2021 03:27:43: 23000000 INFO @ Thu, 09 Dec 2021 03:27:43: #1 tag size is determined as 51 bps INFO @ Thu, 09 Dec 2021 03:27:43: #1 tag size = 51 INFO @ Thu, 09 Dec 2021 03:27:43: #1 total tags in treatment: 23013509 INFO @ Thu, 09 Dec 2021 03:27:43: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:27:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:27:44: #1 tags after filtering in treatment: 23013509 INFO @ Thu, 09 Dec 2021 03:27:44: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:27:44: #1 finished! INFO @ Thu, 09 Dec 2021 03:27:44: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:27:44: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:27:45: #2 number of paired peaks: 189 WARNING @ Thu, 09 Dec 2021 03:27:45: Fewer paired peaks (189) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 189 pairs to build model! INFO @ Thu, 09 Dec 2021 03:27:45: start model_add_line... INFO @ Thu, 09 Dec 2021 03:27:46: start X-correlation... INFO @ Thu, 09 Dec 2021 03:27:46: end of X-cor INFO @ Thu, 09 Dec 2021 03:27:46: #2 finished! INFO @ Thu, 09 Dec 2021 03:27:46: #2 predicted fragment length is 0 bps INFO @ Thu, 09 Dec 2021 03:27:46: #2 alternative fragment length(s) may be 0,44 bps INFO @ Thu, 09 Dec 2021 03:27:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8582559/SRX8582559.05_model.r WARNING @ Thu, 09 Dec 2021 03:27:46: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:27:46: #2 You may need to consider one of the other alternative d(s): 0,44 WARNING @ Thu, 09 Dec 2021 03:27:46: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:27:46: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:27:46: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:27:48: 15000000 INFO @ Thu, 09 Dec 2021 03:27:49: 20000000 INFO @ Thu, 09 Dec 2021 03:27:57: 21000000 INFO @ Thu, 09 Dec 2021 03:27:57: 16000000 INFO @ Thu, 09 Dec 2021 03:28:05: 22000000 INFO @ Thu, 09 Dec 2021 03:28:07: 17000000 INFO @ Thu, 09 Dec 2021 03:28:13: 23000000 INFO @ Thu, 09 Dec 2021 03:28:13: #1 tag size is determined as 51 bps INFO @ Thu, 09 Dec 2021 03:28:13: #1 tag size = 51 INFO @ Thu, 09 Dec 2021 03:28:13: #1 total tags in treatment: 23013509 INFO @ Thu, 09 Dec 2021 03:28:13: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:28:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:28:14: #1 tags after filtering in treatment: 23013509 INFO @ Thu, 09 Dec 2021 03:28:14: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:28:14: #1 finished! INFO @ Thu, 09 Dec 2021 03:28:14: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:28:14: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:28:16: #2 number of paired peaks: 189 WARNING @ Thu, 09 Dec 2021 03:28:16: Fewer paired peaks (189) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 189 pairs to build model! INFO @ Thu, 09 Dec 2021 03:28:16: start model_add_line... INFO @ Thu, 09 Dec 2021 03:28:16: start X-correlation... INFO @ Thu, 09 Dec 2021 03:28:16: end of X-cor INFO @ Thu, 09 Dec 2021 03:28:16: #2 finished! INFO @ Thu, 09 Dec 2021 03:28:16: #2 predicted fragment length is 0 bps INFO @ Thu, 09 Dec 2021 03:28:16: #2 alternative fragment length(s) may be 0,44 bps INFO @ Thu, 09 Dec 2021 03:28:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8582559/SRX8582559.10_model.r WARNING @ Thu, 09 Dec 2021 03:28:16: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:28:16: #2 You may need to consider one of the other alternative d(s): 0,44 WARNING @ Thu, 09 Dec 2021 03:28:16: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:28:16: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:28:16: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:28:16: 18000000 INFO @ Thu, 09 Dec 2021 03:28:25: 19000000 INFO @ Thu, 09 Dec 2021 03:28:34: 20000000 INFO @ Thu, 09 Dec 2021 03:28:44: 21000000 BigWig に変換しました。 /var/spool/uge/at077/job_scripts/14160549: line 297: 19991 Terminated MACS $i /var/spool/uge/at077/job_scripts/14160549: line 297: 24680 Terminated MACS $i /var/spool/uge/at077/job_scripts/14160549: line 297: 27370 Terminated MACS $i ls: cannot access SRX8582559.05.bed: No such file or directory mv: cannot stat ‘SRX8582559.05.bed’: No such file or directory mv: cannot stat ‘SRX8582559.05.bb’: No such file or directory ls: cannot access SRX8582559.10.bed: No such file or directory mv: cannot stat ‘SRX8582559.10.bed’: No such file or directory mv: cannot stat ‘SRX8582559.10.bb’: No such file or directory ls: cannot access SRX8582559.20.bed: No such file or directory mv: cannot stat ‘SRX8582559.20.bed’: No such file or directory mv: cannot stat ‘SRX8582559.20.bb’: No such file or directory